User: Abhi

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Abhi1.4k
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Posts by Abhi

<prev • 133 results • page 1 of 14 • next >
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project top genes/proteins on a Protein-Protein Interaction (PPI) network map
... Hi Folks Posting here after a long hiatus. We have identified diffExp genes (RNA-Seq) and proteins (MS/MS proteomics exp) for various drug treatments on cell lines. Just wondering whats tools are available for quickly building (more so using) an available Protein-Protein Interaction dbase for pro ...
ppi networks rna-seq written 15 months ago by Abhi1.4k • updated 15 months ago by Jean-Karim Heriche12k
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comparing protein networks over time
... Hey Guys I have constructed two separate protein interaction networks each denotes a time point of the assay at 2hours and 24 hours. Just wondering what tools and techniques I can use them to compare these networks both for biological and visual interpretation. Thanks! -Abhi ...
ppi protein network written 2.0 years ago by Abhi1.4k • updated 2.0 years ago by Jean-Karim Heriche12k
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Comment: C: "web browser" compatible genome browsers
... thanks Alex. just wondering if you can also comment on their performance if you have used/implemented them locally at your workplace. It will definitely save me few hours/days. -A ...
written 2.3 years ago by Abhi1.4k
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"web browser" compatible genome browsers
... I am looking for solutions for visualizing genomics data which support viewing data on a _web browser_. I know of two possible solutions but mostl likely I am missing few. Jbrowse  Google's GA browse Key requirements The solution should be able to integrate into a browser and not a standalone ...
genome browser written 2.3 years ago by Abhi1.4k • updated 3 months ago by dbarrios0
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processing Illumina HT12v4.0 expression data from GEO
... Hi Guys I would like to know the basic analysis workflow for downloading and processing a Illumina HTV12 expression data from GEO. I have seen the beadArray vignette but not sure which normalization process to use.   For example with Affy datasets I normally download the raw data and normalize it ...
R bioconductor illlumina written 3.1 years ago by Abhi1.4k
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Comment: C: visualizing gene and microarray expression datasets together
... this is certainly hitting on the other side of my intuition and now even more excited to see if there are any patterns in miRNA and mRNA expression in this datasets. I sort of thought we would see some negative correlation. ...
written 3.1 years ago by Abhi1.4k
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Comment: C: visualizing gene and microarray expression datasets together
... sure done..see the initial post ...
written 3.1 years ago by Abhi1.4k
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visualizing gene and microarray expression datasets together
... Hi Folks I am trying to think of ways in which I can display microRNA and gene expression datasets. For now I am doing two separate interactive heatmaps.   here is gene expression   and microRNA expression  I think it would be more powerful if one could summarize them together and show how ...
visualization rna-seq microrna written 3.1 years ago by Abhi1.4k • updated 3.1 years ago by Asaf4.1k
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finding mutations in RNA-Seq data
... Hey Guys Just wondering if someone can point me to any literature for finding mutations in the RNA-Seq data. Google did take me to few interesting blogs but not sure if I covered the recommended methods out there. Cheers! -Abhi ...
rna-seq snp written 3.2 years ago by Abhi1.4k
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Comment: C: Copy Number Variation Analysis
... Thanks .. something to get started  ...
written 3.2 years ago by Abhi1.4k

Latest awards to Abhi

Popular Question 15 months ago, created a question with more than 1,000 views. For Public Electronic Health Records Database
Great Question 18 months ago, created a question with more than 5,000 views. For Extracting Reads That Are Properly Paired From Bam File
Great Question 18 months ago, created a question with more than 5,000 views. For Public Electronic Health Records Database
Popular Question 18 months ago, created a question with more than 1,000 views. For Public Electronic Health Records Database
Good Question 24 months ago, asked a question that was upvoted at least 5 times. For Public Electronic Health Records Database
Epic Question 24 months ago, created a question with more than 10,000 views. For Public Electronic Health Records Database
Popular Question 24 months ago, created a question with more than 1,000 views. For Metatranscriptome Assemblers
Popular Question 24 months ago, created a question with more than 1,000 views. For Choosing A Baseline Set Of Genes For Go Enrichment Analysis
Great Question 24 months ago, created a question with more than 5,000 views. For Public Electronic Health Records Database
Popular Question 24 months ago, created a question with more than 1,000 views. For Application Of Pacbio Based Cdna Data In Rna-Seq Analysis
Popular Question 24 months ago, created a question with more than 1,000 views. For Public Electronic Health Records Database
Popular Question 24 months ago, created a question with more than 1,000 views. For Generating Gene List From Cufflinks Transcripts
Popular Question 24 months ago, created a question with more than 1,000 views. For Tracking Reads/Contigs In Velvet
Student 24 months ago, asked a question with at least 3 up-votes. For Clustering Million Points : Transcript Start And End Sites
Popular Question 24 months ago, created a question with more than 1,000 views. For Clustering Million Points : Transcript Start And End Sites
Student 2.0 years ago, asked a question with at least 3 up-votes. For Clustering Million Points : Transcript Start And End Sites
Popular Question 2.1 years ago, created a question with more than 1,000 views. For Clustering Million Points : Transcript Start And End Sites
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Clustering Million Points : Transcript Start And End Sites
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Copy Number Analysis V/S Differential Gene Expression
Great Question 2.2 years ago, created a question with more than 5,000 views. For Clustering Gene Expression For Time Course Rna-Seq Data
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Clustering Million Points : Transcript Start And End Sites
Great Question 2.9 years ago, created a question with more than 5,000 views. For Clustering Gene Expression For Time Course Rna-Seq Data
Great Question 2.9 years ago, created a question with more than 5,000 views. For Public Electronic Health Records Database
Appreciated 2.9 years ago, created a post with more than 5 votes. For Public Electronic Health Records Database
Appreciated 2.9 years ago, created a post with more than 5 votes. For A: Clustering Gene Expression For Time Course Rna-Seq Data

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